SMTL ID : 3sdz.1

Structural characterization of the subunit A mutant F427W of the A-ATP synthase from Pyrococcus horikoshii

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

monomer

Ligands

6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 5 residues within 4Å: Chain A: V.242, H.245, Q.246, K.249, A.507 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.246, A:K.249 MPD.2: 9 residues within 4Å: Chain A: I.309, A.330, D.331, S.332, L.364, Y.368, G.390, A.391, V.403 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.309, A:V.403 Hydrogen bonds: A:S.332, A:Y.368 MPD.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MPD.4: 5 residues within 4Å: Chain A: K.461, A.464, L.465, K.468, Y.531 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.461, A:A.464, A:L.465, A:K.468 Water bridges: A:Y.531 MPD.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MPD.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

6 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 2 residues within 4Å: Chain A: E.562, L.571 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.571 Hydrogen bonds: A:E.562 ACY.7: 2 residues within 4Å: Chain A: I.212, D.252 No protein-ligand interaction detected (PLIP) ACY.8: 1 residues within 4Å: Chain A: K.282 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.282 ACY.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACY.10: 5 residues within 4Å: Chain A: T.241, H.245, D.270, V.271, F.275 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.241, A:F.275 ACY.15: 2 residues within 4Å: Chain A: E.54, S.71 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.71

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.11: 3 residues within 4Å: Chain A: K.198, Y.201, K.202 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.198, A:K.198, A:Y.201, A:Y.201, A:K.202 Water bridges: A:Y.201 TRS.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) TRS.13: 5 residues within 4Å: Chain A: K.123, A.124, D.128, D.134, I.135 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tadwal, V.S. et al., Engineered tryptophan in the adenine-binding pocket of catalytic subunit A of A-ATP synthase demonstrates the importance of aromatic residues in adenine binding, forming a tool for steady-state and time-resolved fluorescence spectroscopy. Acta Crystallogr.,Sect.F (2011)

Release Date

2012-01-25

Peptides

V-type ATP synthase alpha chain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

V-type ATP synthase alpha chain